Source: abyss Version: 2.3.7-1 Severity: serious Tags: ftbfs Justification: fails to build from source (but built successfully in the past)
Dear maintainer, abyss fails to build from source. From my build log on amd64: | Making all in Graph | make[4]: Entering directory '/<<PKGBUILDDIR>>/Graph' | g++ -std=c++11 -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/x86_64-linux-gnu/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Werror -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_gc-gc.o `test -f 'gc.cc' || echo './'`gc.cc | g++ -std=c++11 -Wall -Wextra -Werror -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/x86_64-linux-gnu/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-gc abyss_gc-gc.o ../Common/libcommon.a -ldl -lm | g++ -std=c++11 -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/x86_64-linux-gnu/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Werror -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_todot-todot.o `test -f 'todot.cc' || echo './'`todot.cc | In file included from GraphIO.h:10, | from todot.cc:9: | GfaIO.h: In instantiation of ‘std::ostream& write_gfa2_edges(std::ostream&, const Graph&, const DistanceEst*) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>]’: | GfaIO.h:216:25: required from ‘std::ostream& write_gfa2(std::ostream&, Graph&) [with Graph = const ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>]’ | GraphIO.h:37:20: required from ‘std::ostream& write_graph(std::ostream&, const Graph&, const std::string&, const std::string&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>; std::string = std::__cxx11::basic_string<char>]’ | todot.cc:186:14: required from here | GfaIO.h:182:27: error: possibly dangling reference to a temporary [-Werror=dangling-reference] | 182 | const EP& ep = get(edge_bundle, g, eit); | | ^~ | GfaIO.h:182:35: note: the temporary was destroyed at the end of the full expression ‘get<ContigProperties, DistanceEst>(boost::edge_bundle, g.ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >::<anonymous>, DirectedGraph<ContigProperties, DistanceEst>::edge_iterator(eit))’ | 182 | const EP& ep = get(edge_bundle, g, eit); | | ~~~^~~~~~~~~~~~~~~~~~~~~ | In file included from GraphIO.h:8: | DotIO.h: In instantiation of ‘void write_edges(std::ostream&, const Graph&, typename boost::graph_traits<Graph>::vertex_descriptor, const EdgeProp*) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; EdgeProp = DistanceEst; std::ostream = std::basic_ostream<char>; typename boost::graph_traits<Graph>::vertex_descriptor = ContigNode]’: | DotIO.h:110:14: required from ‘std::ostream& write_dot(std::ostream&, const Graph&, const std::string&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>; std::string = std::__cxx11::basic_string<char>]’ | DotIO.h:77:18: required from ‘std::ostream& write_dot(std::ostream&, const Graph&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>]’ | DotIO.h:125:26: required from ‘std::ostream& operator<<(std::ostream&, const DotWriter<ContigGraph<DirectedGraph<ContigProperties, DistanceEst> > >&)’ | GraphIO.h:33:14: required from ‘std::ostream& write_graph(std::ostream&, const Graph&, const std::string&, const std::string&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, DistanceEst> >; std::ostream = std::basic_ostream<char>; std::string = std::__cxx11::basic_string<char>]’ | todot.cc:186:14: required from here | DotIO.h:44:43: error: possibly dangling reference to a temporary [-Werror=dangling-reference] | 44 | const edge_property_type& ep = get(edge_bundle, g, e); | | ^~ | DotIO.h:44:51: note: the temporary was destroyed at the end of the full expression ‘get<DirectedGraph<ContigProperties, DistanceEst> >(boost::edge_bundle, (* & g), DirectedGraph<ContigProperties, DistanceEst>::out_edge_iterator(e))’ | 44 | const edge_property_type& ep = get(edge_bundle, g, e); | | ~~~^~~~~~~~~~~~~~~~~~~ | DotIO.h: In instantiation of ‘void write_edges(std::ostream&, const Graph&, typename boost::graph_traits<Graph>::vertex_descriptor, const EdgeProp*) [with Graph = ContigGraph<DirectedGraph<ContigProperties, Distance> >; EdgeProp = Distance; std::ostream = std::basic_ostream<char>; typename boost::graph_traits<Graph>::vertex_descriptor = ContigNode]’: | DotIO.h:110:14: required from ‘std::ostream& write_dot(std::ostream&, const Graph&, const std::string&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, Distance> >; std::ostream = std::basic_ostream<char>; std::string = std::__cxx11::basic_string<char>]’ | DotIO.h:77:18: required from ‘std::ostream& write_dot(std::ostream&, const Graph&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, Distance> >; std::ostream = std::basic_ostream<char>]’ | DotIO.h:125:26: required from ‘std::ostream& operator<<(std::ostream&, const DotWriter<ContigGraph<DirectedGraph<ContigProperties, Distance> > >&)’ | GraphIO.h:33:14: required from ‘std::ostream& write_graph(std::ostream&, const Graph&, const std::string&, const std::string&) [with Graph = ContigGraph<DirectedGraph<ContigProperties, Distance> >; std::ostream = std::basic_ostream<char>; std::string = std::__cxx11::basic_string<char>]’ | todot.cc:191:14: required from here | DotIO.h:44:43: error: possibly dangling reference to a temporary [-Werror=dangling-reference] | 44 | const edge_property_type& ep = get(edge_bundle, g, e); | | ^~ | DotIO.h:44:51: note: the temporary was destroyed at the end of the full expression ‘get<DirectedGraph<ContigProperties, Distance> >(boost::edge_bundle, (* & g), DirectedGraph<ContigProperties, Distance>::out_edge_iterator(e))’ | 44 | const edge_property_type& ep = get(edge_bundle, g, e); | | ~~~^~~~~~~~~~~~~~~~~~~ | cc1plus: all warnings being treated as errors | make[4]: *** [Makefile:465: abyss_todot-todot.o] Error 1 | make[4]: Leaving directory '/<<PKGBUILDDIR>>/Graph' | make[3]: *** [Makefile:488: all-recursive] Error 1 | make[3]: Leaving directory '/<<PKGBUILDDIR>>' | make[2]: *** [Makefile:408: all] Error 2 | make[2]: Leaving directory '/<<PKGBUILDDIR>>' | dh_auto_build: error: make -j1 returned exit code 2 | make[1]: *** [debian/rules:17: override_dh_auto_build] Error 25 | make[1]: Leaving directory '/<<PKGBUILDDIR>>' | make: *** [debian/rules:10: binary-arch] Error 2 | dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 A full build log on riscv64 is also available: https://buildd.debian.org/status/fetch.php?pkg=abyss&arch=riscv64&ver=2.3.7-1&stamp=1693038499&raw=0 Regards Aurelien
